Uninstalling seems to delete entities where "_deleted" or "workspace" columns are NULL

I'm not sure how or why this is the case, but on my site, some entities (perhaps those which were created before Multiversion was installed) have NULL for "_deleted" and "workspace". I noticed that when running "drush mdt ENTITYTYPE" on those entity types, it deletes all of those items. This led to busted content that referenced them.

To work around this, I had to run these queries before uninstalling Multiversion:

UPDATE media_field_data SET workspace = 1, _deleted = 0 WHERE _deleted IS NULL;
UPDATE media_field_revision SET _deleted = 0 WHERE _deleted IS NULL;
UPDATE taxonomy_term_field_data SET workspace = 1, _deleted = 0 WHERE _deleted IS NULL;
UPDATE taxonomy_term_field_revision SET _deleted = 0 WHERE _deleted IS NULL;
UPDATE crop_field_data SET workspace = 1, _deleted = 0 WHERE _deleted IS NULL;
UPDATE crop_field_revision SET _deleted = 0 WHERE _deleted IS NULL;

Can the uninstaller skip over these? Or warn the user that they exist and will be deleted?